Number of reads for each of the samples and number of sequences left after representative analysis steps.
| ID | Source | Treatment | Extraction_time | Population | Sequences_R1 | Sequences_R2 | Filtered_quality_R1 | Filtered_quality_R2 | Mask_primers_R1 | Mask_primers_R2 | Paired | Build_consensus | Assemble_pairs | Unique | Representative_2 | Igblast |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| QMKMK229AC | CLAD1 | Cladribin | baseline | DN | 1001901 | 1001901 | 998230 | 929323 | 950964 | 889152 | 874759 | 523734 | 90354 | 59291 | 8472 | 6790 |
| QMKMK230AF | CLAD1 | Cladribin | baseline | N | 601885 | 601885 | 599360 | 566181 | 571750 | 543140 | 533806 | 402067 | 97531 | 92697 | 6385 | 4471 |
| QMKMK231AN | CLAD1 | Cladribin | baseline | M | 1036290 | 1036290 | 1033363 | 964197 | 980082 | 919636 | 904197 | 780525 | 135765 | 124169 | 4958 | 4670 |
| QMKMK232AV | CLAD1 | Cladribin | baseline | P | 1352414 | 1352414 | 1346800 | 1262235 | 1290104 | 1212304 | 1196447 | 939220 | 149863 | 130713 | 7714 | 6760 |
| QMKMK233A5 | CLAD1 | Cladribin | 6months | DN | 1223690 | 1223690 | 1218476 | 1135468 | 1160160 | 1085218 | 1067347 | 791259 | 164348 | 121167 | 12720 | 11196 |
| QMKMK234AD | CLAD1 | Cladribin | 6months | N | 577697 | 577697 | 574852 | 539847 | 539088 | 508859 | 500228 | 385783 | 89643 | 88089 | 4824 | 3042 |
| QMKMK235AL | CLAD1 | Cladribin | 6months | M | 801072 | 801072 | 799337 | 750714 | 761523 | 718534 | 706606 | 608542 | 111207 | 95243 | 4519 | 4087 |
| QMKMK236AT | CLAD1 | Cladribin | 6months | P | 2043123 | 2043123 | 2033938 | 1877437 | 1930800 | 1784871 | 1761332 | 1235843 | 181414 | 160573 | 15491 | 13605 |
| QMKMK241AU | CLAD1 | Cladribin | 12months | DN | 1857453 | 1857453 | 1847028 | 1701105 | 1709731 | 1569714 | 1550126 | 857641 | 153794 | 117452 | 14305 | 11726 |
| QMKMK242A4 | CLAD1 | Cladribin | 12months | M | 1850771 | 1850771 | 1846857 | 1708178 | 1770918 | 1632432 | 1611884 | 1280996 | 217155 | 195288 | 10505 | 7909 |
| QMKMK243AC | CLAD1 | Cladribin | 12months | N | 1244736 | 1244736 | 1242282 | 1135476 | 1178264 | 1075176 | 1059637 | 679941 | 139275 | 136730 | 15410 | 4897 |
| QMKMK244AK | CLAD1 | Cladribin | 12months | P | 1811754 | 1811754 | 1807946 | 1664568 | 1739221 | 1597527 | 1577659 | 1079483 | 254309 | 209762 | 21112 | 17524 |
| QMKMK533AN | CLAD2 | Cladribin | baseline | N | 299299 | 299299 | 298776 | 284644 | 278650 | 263896 | 259773 | 136538 | 42888 | 21024 | 3065 | 2478 |
| QMKMK534AV | CLAD2 | Cladribin | baseline | M | 911354 | 911354 | 909208 | 856360 | 853308 | 802774 | 789542 | 619034 | 99507 | 87314 | 6089 | 5676 |
| QMKMK535A5 | CLAD2 | Cladribin | baseline | DN | 1548122 | 1548122 | 1546518 | 1485086 | 1455661 | 1392202 | 1373849 | 746018 | 162419 | 91821 | 14291 | 12022 |
| QMKMK536AD | CLAD2 | Cladribin | baseline | P | 828075 | 828075 | 826764 | 781959 | 769833 | 729669 | 715212 | 583392 | 116702 | 101158 | 7315 | 7063 |
| QMKMK537AL | CLAD2 | Cladribin | 6months | N | 1695948 | 1695948 | 1695010 | 1636672 | 1564060 | 1506398 | 1482971 | 541495 | 162342 | 145708 | 25035 | 10021 |
| QMKMK538AT | CLAD2 | Cladribin | 6months | M | 2467900 | 2467900 | 2466808 | 2356982 | 2309769 | 2200497 | 2169463 | 767599 | 187812 | 126230 | 19934 | 17409 |
| QMKMK539A3 | CLAD2 | Cladribin | 6months | DN | 1670407 | 1670407 | 1669498 | 1608729 | 1548656 | 1486886 | 1464870 | 472354 | 119636 | 57322 | 9889 | 8396 |
| QMKMK540A6 | CLAD2 | Cladribin | 6months | P | 1418658 | 1418658 | 1417830 | 1366294 | 1320682 | 1272534 | 1251506 | 771396 | 206754 | 144573 | 18117 | 16226 |
| QMKMK541AE | CLAD2 | Cladribin | 12months | N | 1254799 | 1254799 | 1253722 | 1212466 | 1174117 | 1107772 | 1090535 | 522116 | 180331 | 174806 | 16654 | 7429 |
| QMKMK542AM | CLAD2 | Cladribin | 12months | M | 2480119 | 2480119 | 2478403 | 2372338 | 2315848 | 2199929 | 2166193 | 1126337 | 265733 | 232685 | 15947 | 13290 |
| QMKMK543AU | CLAD2 | Cladribin | 12months | DN | 1492340 | 1492340 | 1491521 | 1430650 | 1373414 | 1309222 | 1288903 | 743614 | 187692 | 140124 | 15720 | 12862 |
| QMKMK544A4 | CLAD2 | Cladribin | 12months | P | 1104002 | 1104002 | 1103382 | 1063497 | 1036043 | 994570 | 979051 | 493550 | 147756 | 93526 | 13523 | 11414 |
| QMKMK545AC | CLAD3 | Cladribin | baseline | N | 1571620 | 1571620 | 1570771 | 1523584 | 1497824 | 1451341 | 1431781 | 543127 | 171669 | 143577 | 26458 | 14092 |
| QMKMK546AK | CLAD3 | Cladribin | baseline | M | 1798031 | 1798031 | 1796794 | 1739586 | 1712984 | 1656005 | 1636655 | 1007055 | 254908 | 229383 | 13572 | 12353 |
| QMKMK547AS | CLAD3 | Cladribin | baseline | DN | 1325826 | 1325826 | 1324051 | 1277183 | 1262297 | 1218805 | 1199399 | 629789 | 146170 | 105948 | 13939 | 11562 |
| QMKMK548A2 | CLAD3 | Cladribin | baseline | P | 1375460 | 1375460 | 1374152 | 1327752 | 1308934 | 1264258 | 1245115 | 730531 | 161034 | 141145 | 13243 | 12400 |
| QMKMK549AA | CLAD3 | Cladribin | 6months | N | 1385899 | 1385899 | 1385012 | 1335147 | 1305595 | 1255991 | 1239376 | 490511 | 158561 | 140713 | 30701 | 13136 |
| QMKMK550AD | CLAD3 | Cladribin | 6months | M | 1240876 | 1240876 | 1240142 | 1207393 | 1183864 | 1149887 | 1136654 | 681735 | 204620 | 143599 | 17407 | 15520 |
| QMKMK551AL | CLAD3 | Cladribin | 6months | DN | 261349 | 261349 | 260058 | 244972 | 215326 | 231145 | 197023 | 176276 | 32325 | 19157 | 2454 | 1429 |
| QMKMK552AT | CLAD3 | Cladribin | 6months | P | 235034 | 235034 | 234857 | 229626 | 224030 | 219497 | 216216 | 172573 | 77444 | 53394 | 7446 | 7258 |
| QMKMK553A3 | CLAD3 | Cladribin | 12months | N | 1591756 | 1591756 | 1590676 | 1540766 | 1517741 | 1464383 | 1445065 | 515307 | 173696 | 149077 | 28654 | 15266 |
| QMKMK554AB | CLAD3 | Cladribin | 12months | M | 1564019 | 1564019 | 1562831 | 1507023 | 1492048 | 1428178 | 1411785 | 779001 | 213213 | 166219 | 19733 | 15266 |
| QMKMK555AJ | CLAD3 | Cladribin | 12months | DN | 111483 | 111483 | 111312 | 107140 | 103242 | 100959 | 97245 | 85541 | 42105 | 30219 | 5062 | 4850 |
| QMKMK556AR | CLAD3 | Cladribin | 12months | P | 155013 | 155013 | 154892 | 151406 | 146876 | 144291 | 141167 | 87747 | 48027 | 25315 | 4504 | 4231 |
| QMKMK557A1 | CLAD4 | Cladribin | baseline | N | 1398965 | 1398965 | 1392433 | 1294121 | 1330529 | 1238996 | 1220960 | 745812 | 129060 | 123160 | 9747 | 4513 |
| QMKMK558A9 | CLAD4 | Cladribin | baseline | M | 1374928 | 1374928 | 1368571 | 1237182 | 1305056 | 1178785 | 1164891 | 979676 | 141173 | 122743 | 6397 | 5864 |
| QMKMK559AH | CLAD4 | Cladribin | baseline | DN | 2409179 | 2409179 | 2398262 | 2172405 | 2301729 | 2083291 | 2058484 | 1124304 | 196878 | 154809 | 19618 | 16839 |
| QMKMK560AK | CLAD4 | Cladribin | baseline | P | 1068173 | 1068173 | 1064298 | 978142 | 1021878 | 940132 | 928637 | 709473 | 170030 | 146347 | 9104 | 8545 |
| QMKMK561AS | CLAD4 | Cladribin | 6months | N | 1641107 | 1641107 | 1576042 | 1345005 | 1477248 | 1274519 | 1229456 | 874314 | 68880 | 67173 | 2444 | 132 |
| QMKMK562A2 | CLAD4 | Cladribin | 6months | M | 1385399 | 1385399 | 1379705 | 1250203 | 1320361 | 1196503 | 1179563 | 962386 | 157538 | 143239 | 7102 | 6064 |
| QMKMK563AA | CLAD4 | Cladribin | 6months | DN | 2589345 | 2589345 | 2576384 | 2318103 | 2466634 | 2218225 | 2186658 | 1244923 | 195806 | 163852 | 20595 | 16888 |
| QMKMK564AI | CLAD4 | Cladribin | 6months | P | 1801823 | 1801823 | 1794104 | 1626149 | 1707738 | 1549822 | 1527755 | 970293 | 139581 | 117108 | 10526 | 9214 |
| QMKMK565AQ | CLAD4 | Cladribin | 12months | N | 1233912 | 1233912 | 1227233 | 1127439 | 1171418 | 1074382 | 1058954 | 706032 | 124861 | 119933 | 8175 | 4157 |
| QMKMK566A0 | CLAD4 | Cladribin | 12months | M | 1519136 | 1519136 | 1511801 | 1377911 | 1458300 | 1325813 | 1307238 | 1038900 | 165094 | 139607 | 10053 | 9030 |
| QMKMK567A8 | CLAD4 | Cladribin | 12months | DN | 1084835 | 1084835 | 1077309 | 963006 | 985191 | 874572 | 862952 | 641429 | 113514 | 106906 | 8242 | 4475 |
| QMKMK568AG | CLAD4 | Cladribin | 12months | P | 1322433 | 1322433 | 1317876 | 1210528 | 1271272 | 1164834 | 1150760 | 665756 | 151153 | 105442 | 9341 | 7208 |
| QMKMK569AO | CLAD5 | Cladribin | baseline | N | 1447197 | 1447197 | 1445335 | 1373651 | 1337298 | 1269719 | 1252608 | 619522 | 174482 | 158367 | 18757 | 6710 |
| QMKMK570AR | CLAD5 | Cladribin | baseline | M | 1468661 | 1468661 | 1466765 | 1367672 | 1319151 | 1225178 | 1209652 | 893529 | 189690 | 167978 | 7970 | 6680 |
| QMKMK571A1 | CLAD5 | Cladribin | baseline | DN | 1126741 | 1126741 | 1125031 | 1062795 | 1031127 | 971370 | 960077 | 512019 | 112116 | 70502 | 9251 | 6405 |
| QMKMK572A9 | CLAD5 | Cladribin | baseline | P | 1397460 | 1397460 | 1396014 | 1316108 | 1290285 | 1214297 | 1199625 | 843530 | 178333 | 134207 | 12210 | 10853 |
| QMKMK573AH | CLAD5 | Cladribin | 6months | N | 1329042 | 1329042 | 1326871 | 1258667 | 1193608 | 1129648 | 1114054 | 535460 | 159471 | 147244 | 17033 | 5721 |
| QMKMK574AP | CLAD5 | Cladribin | 6months | M | 1237833 | 1237833 | 1236499 | 1162554 | 1137697 | 1066878 | 1053987 | 813652 | 164645 | 137354 | 6905 | 6396 |
| QMKMK575AX | CLAD5 | Cladribin | 6months | DN | 1383178 | 1383178 | 1381643 | 1296415 | 1266158 | 1181512 | 1167639 | 852502 | 190750 | 173985 | 7869 | 5721 |
| QMKMK576A7 | CLAD5 | Cladribin | 6months | P | 1262705 | 1262705 | 1261244 | 1179067 | 1143706 | 1064972 | 1051693 | 793719 | 206575 | 171238 | 10789 | 9636 |
| QMKMK577AF | CLAD5 | Cladribin | 12months | N | 1351967 | 1351967 | 1350771 | 1280959 | 1243575 | 1172545 | 1156655 | 527191 | 156413 | 144948 | 15828 | 5310 |
| QMKMK578AN | CLAD5 | Cladribin | 12months | M | 713600 | 713600 | 712818 | 676328 | 667632 | 628686 | 622159 | 517446 | 126346 | 101975 | 4161 | 3828 |
| QMKMK579AV | CLAD5 | Cladribin | 12months | DN | 2456014 | 2456014 | 2451084 | 2269903 | 2141182 | 1958202 | 1938322 | 660015 | 132912 | 86965 | 14241 | 11745 |
| QMKMK580A0 | CLAD5 | Cladribin | 12months | P | 834969 | 834969 | 834181 | 787283 | 779041 | 731399 | 722664 | 580598 | 147105 | 115414 | 6571 | 6142 |
| QMKMK581A8 | CLAD6 | Cladribin | baseline | N | 1001206 | 1001206 | 1000860 | 970356 | 962940 | 936587 | 920818 | 443222 | 140232 | 86145 | 18839 | 12881 |
| QMKMK582AG | CLAD6 | Cladribin | baseline | M | 1283684 | 1283684 | 1283183 | 1244329 | 1236314 | 1203407 | 1184237 | 788065 | 169359 | 149750 | 15320 | 14342 |
| QMKMK583AO | CLAD6 | Cladribin | baseline | DN | 1097528 | 1097528 | 1096978 | 1066751 | 1063618 | 1033309 | 1021656 | 634966 | 162233 | 105871 | 17897 | 16466 |
| QMKMK584AW | CLAD6 | Cladribin | baseline | P | 1016627 | 1016627 | 1016172 | 988801 | 984990 | 962146 | 947239 | 442682 | 163962 | 76800 | 20099 | 18856 |
| QMKMK585A6 | CLAD6 | Cladribin | 6months | N | 1285504 | 1285504 | 1285176 | 1251705 | 1229806 | 1201931 | 1182778 | 543799 | 171992 | 148549 | 28207 | 18306 |
| QMKMK586AE | CLAD6 | Cladribin | 6months | M | 1330009 | 1330009 | 1329416 | 1292399 | 1284875 | 1253526 | 1233148 | 891220 | 225136 | 195466 | 18430 | 16976 |
| QMKMK587AM | CLAD6 | Cladribin | 6months | DN | 1242825 | 1242825 | 1240467 | 1197808 | 1200344 | 1156147 | 1137148 | 654641 | 192546 | 126256 | 26229 | 24526 |
| QMKMK588AU | CLAD6 | Cladribin | 6months | P | 1002045 | 1002045 | 1001430 | 967754 | 965269 | 932794 | 921632 | 434169 | 147302 | 84076 | 18894 | 16986 |
| QMKMK589A4 | CLAD6 | Cladribin | 12months | N | 1137999 | 1137999 | 1137344 | 1103323 | 1097509 | 1066778 | 1049119 | 462125 | 140904 | 135519 | 21100 | 13153 |
| QMKMK590A7 | CLAD6 | Cladribin | 12months | M | 1209002 | 1209002 | 1208461 | 1171649 | 1172398 | 1134117 | 1117971 | 734224 | 260959 | 216292 | 24198 | 22100 |
| QMKMK591AF | CLAD6 | Cladribin | 12months | DN | 1197736 | 1197736 | 1197184 | 1151818 | 1136481 | 1087259 | 1076116 | 597057 | 230367 | 158141 | 28591 | 25804 |
| QMKMK592AN | CLAD6 | Cladribin | 12months | P | 992655 | 992655 | 992309 | 965445 | 964234 | 935022 | 924219 | 613740 | 189846 | 142598 | 19691 | 18074 |
| QMKMK593AV | CLAD7 | Cladribin | baseline | N | 1072973 | 1072973 | 1072013 | 1039366 | 988048 | 953478 | 940620 | 440561 | 133368 | 110804 | 16445 | 7779 |
| QMKMK594A5 | CLAD7 | Cladribin | baseline | M | 1840517 | 1840517 | 1838589 | 1774842 | 1701120 | 1635963 | 1614648 | 951547 | 227992 | 188707 | 14405 | 12975 |
| QMKMK595AD | CLAD7 | Cladribin | baseline | DN | 1440796 | 1440796 | 1438064 | 1373169 | 1336916 | 1271791 | 1252865 | 628764 | 132142 | 78579 | 11112 | 9216 |
| QMKMK596AL | CLAD7 | Cladribin | baseline | P | 1677725 | 1677725 | 1676137 | 1618758 | 1542366 | 1484679 | 1464832 | 759842 | 228681 | 135178 | 19623 | 17045 |
| QMKMK597AT | CLAD7 | Cladribin | 6months | N | 1239270 | 1239270 | 1237713 | 1198319 | 1123326 | 1081563 | 1066953 | 497751 | 144787 | 123197 | 13744 | 7291 |
| QMKMK598A3 | CLAD7 | Cladribin | 6months | M | 1298404 | 1298404 | 1297197 | 1252956 | 1196708 | 1145838 | 1133594 | 718360 | 193455 | 162681 | 15846 | 12138 |
| QMKMK599AB | CLAD7 | Cladribin | 6months | DN | 1254978 | 1254978 | 1253336 | 1203733 | 1142735 | 1087229 | 1075266 | 641337 | 171226 | 151010 | 14466 | 9894 |
| QMKMK600AI | CLAD7 | Cladribin | 6months | P | 1479917 | 1479917 | 1470919 | 1412765 | 1358861 | 1304396 | 1281664 | 714210 | 66255 | 62209 | 3083 | 1415 |
| QMKMK601AQ | CLAD7 | Cladribin | 12months | N | 1149545 | 1149545 | 1148532 | 1113085 | 1063607 | 1023791 | 1009898 | 423783 | 141213 | 121701 | 15720 | 8170 |
| QMKMK602A0 | CLAD7 | Cladribin | 12months | M | 1939178 | 1939178 | 1936601 | 1866139 | 1800331 | 1717691 | 1698002 | 1106596 | 245522 | 189688 | 17128 | 15293 |
| QMKMK603A8 | CLAD7 | Cladribin | 12months | DN | 1545739 | 1545739 | 1541982 | 1470482 | 1406198 | 1325331 | 1310600 | 517285 | 81955 | 48826 | 7514 | 6121 |
| QMKMK604AG | CLAD7 | Cladribin | 12months | P | 1211943 | 1211943 | 1210523 | 1172308 | 1132847 | 1087549 | 1075259 | 486518 | 138915 | 90522 | 13011 | 10486 |
| QMKMK605AO | CLAD8 | Cladribin | baseline | N | 1444889 | 1444889 | 1444445 | 1385795 | 1385248 | 1321867 | 1304667 | 533333 | 155798 | 139077 | 20017 | 6759 |
| QMKMK606AW | CLAD8 | Cladribin | baseline | M | 1703561 | 1703561 | 1701051 | 1643939 | 1631017 | 1568457 | 1549559 | 1091551 | 151421 | 140102 | 8872 | 5779 |
| QMKMK607A6 | CLAD8 | Cladribin | baseline | DN | 1108324 | 1108324 | 1107613 | 1067244 | 1061080 | 1015816 | 1004178 | 528412 | 115795 | 81992 | 8232 | 6779 |
| QMKMK608AE | CLAD8 | Cladribin | baseline | P | 1540452 | 1540452 | 1539639 | 1477308 | 1482318 | 1412976 | 1397948 | 991926 | 207541 | 162117 | 13883 | 12397 |
| QMKMK609AM | CLAD8 | Cladribin | 6months | N | 834333 | 834333 | 834049 | 798958 | 780110 | 742394 | 733064 | 418241 | 125716 | 105779 | 11088 | 5615 |
| QMKMK610AP | CLAD8 | Cladribin | 6months | M | 1106235 | 1106235 | 1104644 | 1054961 | 1057632 | 1004099 | 991576 | 776744 | 157852 | 130084 | 6879 | 6471 |
| QMKMK611AX | CLAD8 | Cladribin | 6months | DN | 1303870 | 1303870 | 1303135 | 1240914 | 1243559 | 1172185 | 1160462 | 730474 | 200257 | 157489 | 15954 | 11884 |
| QMKMK612A7 | CLAD8 | Cladribin | 6months | P | 968338 | 968338 | 967925 | 925579 | 923220 | 878144 | 867982 | 661725 | 189758 | 152493 | 10350 | 8882 |
| QMKMK613AF | CLAD8 | Cladribin | 12months | N | 1798683 | 1798683 | 1798081 | 1723011 | 1727265 | 1641478 | 1620069 | 633213 | 173676 | 154775 | 21448 | 8049 |
| QMKMK614AN | CLAD8 | Cladribin | 12months | M | 1186393 | 1186393 | 1185783 | 1139636 | 1142249 | 1085053 | 1073036 | 752118 | 179324 | 153196 | 8280 | 7679 |
| QMKMK615AV | CLAD8 | Cladribin | 12months | DN | 1407945 | 1407945 | 1407291 | 1342821 | 1314510 | 1238663 | 1225435 | 715687 | 188862 | 157705 | 12270 | 9190 |
| QMKMK616A5 | CLAD8 | Cladribin | 12months | P | 1029639 | 1029639 | 1029226 | 988857 | 995363 | 947316 | 936477 | 661648 | 182340 | 158080 | 7835 | 7172 |
For plotting the clonal abundance, the clones were ordered by size from bigger clones to smaller clones (x-axis, Rank). The Abundance of each clone was represented as the percentage of unique sequences in the clone, with respect to the total number of unique sequences in that subject (By Patient) or in the B-cell or T-cell sample (By Cell Population).
To correct for the different number of sequences in each of the samples, the Bootstrapping technique was employed, in which 200 random bootstrap samples were taken, with size the number of sequences in the sample with less sequences (N). The solid line shows the mean Abundance of the bootstrap samples, whereas the transparent area shows the full Abundance range of the bootstrap samples.
All clonal abundance plots and tables with abundance values can be
found under repertoire_analysis/Abundance.
If different types of B-cell or T-cell populations are provided, here the clonal abundance is plotted for each patient and B / T-cell population.
The clonal diversity \(D\) of the repertoire was calculated according to the general formula of Hill Diversity numbers:
\[ \begin{aligned} ^{q}D = \left( \sum_{i=1}^Rp_i^q \right)^{1/(1-q)} \end{aligned} \]
where:
At \(q=1\) the function is undefined and the limit to zero equals the exponential of the Shannon Entropy:
\[ \begin{aligned} ^{1}D = exp \left( \sum_{i=1}^Rp_i ln(p_i) \right) \end{aligned} \]
The intuition about the different Hill Diversity values is the following:
All clonal diversity plots and tables with diversity values can be
found under repertoire_analysis/Diversity. To correct for
the different number of sequences in each of the samples, the
Bootstrapping technique was employed, in which 200 random bootstrap
samples were taken, with size the number of sequences in the sample with
less sequences (N). The solid line shows the mean Diversity of the
bootstrap samples, whereas the transparent area shows the full Diversity
range of the bootstrap samples.
The V gene usage (in percentage) in each of the samples is represented below. All plots and tables can be found here.
Gene family usage is normalized by the number of clones.
The V gene usage (in percentage) in each of the samples is represented below. All plots and tables can be found here.
## `summarise()` has grouped output by 'isotype', 'sample', 'source', 'treatment'. You can override using the `.groups` argument.
## `summarise()` has grouped output by 'isotype', 'sample_pop', 'source', 'treatment', 'extract_time'. You can override using the `.groups` argument.
If you use nf-core/bcellmagic for your analysis, please cite it using the following DOI: 10.5281/zenodo.3607408
Please also cite the nf-core publication (P. A. Ewels et al. 2020).
In addition, citations for the tools and data used in this pipeline are as follows: